Shiny is an open-source R package that allows building interactive web applications from R, and without knowledge of web-development, enabling data scientists to make their data or analysis interactively explorable and accessible to colleagues, end-users, and/or for publication.

In this course, we will introduce the R Shiny framework, and equip R programmers with the basic tools to build and deploy their own web apps.

Shiny is an open-source R package that allows building interactive web applications from R, and without knowledge of web-development, enabling data scientists to make their data or analysis interactively explorable and accessible to colleagues, end-users, and/or for publication.

In this course, we will introduce the R Shiny framework, and equip R programmers with the basic tools to build and deploy their own web apps.

In contrast to the Bulk RNA sequencing used to quantify the abundance of gene and transcript expression at a whole population level, single-cell RNA sequencing (scRNAseq) allows researchers to study gene expression profile at a single cell resolution while enabling the discovery of tissue specific sub populations and markers. For example, contrasting different sample conditions i.e. disease vs. normal using scRNAseq can help identify sub-cellular differential behaviours and thus target specific gene markers. This 2-days course will cover the main technologies as well main aspects to consider while designing a scRNAseq experiment including a hands-on practical data analysis session applied to droplet-based methods.

During the first part of this workshop, researchers and professionals involved in Big Data management at VitalIT/SIB as well as in Data Management Plan preparation at UNIL/CHUV will teach you best practices in data management and how to collect, describe, store, secure and archive research data. You will be introduced to the need for a Data Management Plan (DMP) preparation, an evolving document reporting how the research data will be managed during and after a research project.

This workshop aims to present several computer-aided drug design tools developed at SIB. Several examples are taken from different therapeutical fields. The exercises are available to a wide audience.

The course will focus on learning and internalizing the practices of unit testing, refactoring, and version control through hands-on experience. The first morning will start with an introduction into these concepts and tools used to support them. In the afternoon, we will transition to a code clinic and work together in small groups applying these practices to make improvements to code brought by participants. The second day will continue with the code clinic.

CAS-PMO 2018-2019